NM_000527.5(LDLR):c.2485C>T (p.Gln829Ter) AND Familial hypercholesterolemia

Germline classification:: Pathogenic (1 submission)
Last evaluated:: Aug 23, 2022
Review status:: 1 star out of maximum of 4 stars
criteria provided, single submitter

Somatic classification of clinical impact:: None
Review status:: (0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided

Somatic classification of oncogenicity:: None
Review status:: (0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided

Record status:: current
Accession:: RCV001946589.4

Allele description [Variation Report for NM_000527.5(LDLR):c.2485C>T (p.Gln829Ter)]

NM_000527.5(LDLR):c.2485C>T (p.Gln829Ter)

Gene:

LDLR:low density lipoprotein receptor [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

19p13.2

Genomic location:

Preferred name:

NM_000527.5(LDLR):c.2485C>T (p.Gln829Ter)

HGVS:

NC_000019.10:g.11129608C>T
NG_009060.1:g.45228C>T
NM_000527.5:c.2485C>TMANE SELECT
NM_001195798.2:c.2485C>T
NM_001195799.2:c.2362C>T
NM_001195800.2:c.1981C>T
NM_001195803.2:c.1951C>T
NP_000518.1:p.Gln829Ter
NP_001182727.1:p.Gln829Ter
NP_001182728.1:p.Gln788Ter
NP_001182729.1:p.Gln661Ter
NP_001182732.1:p.Gln651Ter
LRG_274:g.45228C>T
NC_000019.9:g.11240284C>T

Protein change:

Q651*

Links:

dbSNP: rs2077688650

NCBI 1000 Genomes Browser:

rs2077688650

Molecular consequence:

NM_000527.5:c.2485C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001195798.2:c.2485C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001195799.2:c.2362C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001195800.2:c.1981C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001195803.2:c.1951C>T - nonsense - [Sequence Ontology: SO:0001587]

Condition(s)

Name:: Familial hypercholesterolemia
Identifiers:: MONDO: MONDO:0005439; MedGen: C0020445; OMIM: PS143890

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PLCG2 [Taeniopygia guttata]
PLCG2 [Taeniopygia guttata]
Gene ID:100219388

Gene
Homo sapiens isolate CHM13 chromosome 11, alternate assembly T2T-CHM13v2.0
Homo sapiens isolate CHM13 chromosome 11, alternate assembly T2T-CHM13v2.0
gi|2194973393|gnl|ASM:GCF_009914825 ef|NC_060935.1||gpp|GPC_000012750.1||gnl|NCBI_GENOMES|119571

Nucleotide
PubChem Substance Links for Gene (Select 57453) (68)
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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV002232777	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Pathogenic (Aug 23, 2022)	germline	clinical testing	PubMed (4) [See all records that cite these PMIDs] 30293936, 20809525, 28645073, 28492532

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV002232777

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Pathogenic
(Aug 23, 2022)

germline

clinical testing

PubMed (4)
[See all records that cite these PMIDs]

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing

Citations

PubMed

Autosomal dominant hypercholesterolemia in Catalonia: Correspondence between clinical-biochemical and genetic diagnostics in 967 patients studied in a multicenter clinical setting.

Martín-Campos JM, Plana N, Figueras R, Ibarretxe D, Caixàs A, Esteve E, Pérez A, Bueno M, Mauri M, Roig R, Martínez S, Pintó X, Masana L, Julve J, Blanco-Vaca F; Xarxa d’Unitats de Lípids i Arteriosclerosi (XULA)..

J Clin Lipidol. 2018 Nov - Dec;12(6):1452-1462. doi: 10.1016/j.jacl.2018.09.002. Epub 2018 Sep 7.

PubMed [citation]

PMID:: 30293936

Molecular spectrum of autosomal dominant hypercholesterolemia in France.

Marduel M, Carrié A, Sassolas A, Devillers M, Carreau V, Di Filippo M, Erlich D, Abifadel M, Marques-Pinheiro A, Munnich A, Junien C; French ADH Research Network., Boileau C, Varret M, Rabès JP.

Hum Mutat. 2010 Nov;31(11):E1811-24. doi: 10.1002/humu.21348.

PubMed [citation]

PMID:: 20809525
PMCID:: PMC3152176

See all PubMed Citations (4)

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV002232777.3

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	PubMed (4)

Description

This premature translational stop signal has been observed in individual(s) with LDLR-related conditions (PMID: 30293936). For these reasons, this variant has been classified as Pathogenic. ClinVar contains an entry for this variant (Variation ID: 1455439). This variant is not present in population databases (gnomAD no frequency). This sequence change creates a premature translational stop signal (p.Gln829*) in the LDLR gene. It is expected to result in an absent or disrupted protein product. Loss-of-function variants in LDLR are known to be pathogenic (PMID: 20809525, 28645073).

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	unknown	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Sep 29, 2024

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